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  1. Article: Introducing the Metastatic Breast Cancer Project: a novel patient-partnered initiative to accelerate understanding of MBC.

    Parry, Marina

    ESMO open

    2018  Volume 3, Issue 7, Page(s) e000452

    Language English
    Publishing date 2018-11-01
    Publishing country England
    Document type Journal Article
    ISSN 2059-7029
    ISSN 2059-7029
    DOI 10.1136/esmoopen-2018-000452
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article: Tumor evolution in non-small-cell lung cancer.

    Parry, Marina

    ESMO open

    2018  Volume 3, Issue 6, Page(s) e000436

    Language English
    Publishing date 2018-09-25
    Publishing country England
    Document type Journal Article
    ISSN 2059-7029
    ISSN 2059-7029
    DOI 10.1136/esmoopen-2018-000436
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Copy number architectures define treatment-mediated selection of lethal prostate cancer clones.

    Hasan, A M Mahedi / Cremaschi, Paolo / Wetterskog, Daniel / Jayaram, Anuradha / Wong, Stephen Q / Williams, Scott / Pasam, Anupama / Trigos, Anna / Trujillo, Blanca / Grist, Emily / Friedrich, Stefanie / Vainauskas, Osvaldas / Parry, Marina / Ismail, Mazlina / Devlies, Wout / Wingate, Anna / Linch, Mark / Naceur-Lombardelli, Cristina / Swanton, Charles /
    Jamal-Hanjani, Mariam / Lise, Stefano / Sandhu, Shahneen / Attard, Gerhardt

    Nature communications

    2023  Volume 14, Issue 1, Page(s) 4823

    Abstract: Despite initial responses to hormone treatment, metastatic prostate cancer invariably evolves to a lethal state. To characterize the intra-patient evolutionary relationships of metastases that evade treatment, we perform genome-wide copy number profiling ...

    Abstract Despite initial responses to hormone treatment, metastatic prostate cancer invariably evolves to a lethal state. To characterize the intra-patient evolutionary relationships of metastases that evade treatment, we perform genome-wide copy number profiling and bespoke approaches targeting the androgen receptor (AR) on 167 metastatic regions from 11 organs harvested post-mortem from 10 men who died from prostate cancer. We identify diverse and patient-unique alterations clustering around the AR in metastases from every patient with evidence of independent acquisition of related genomic changes within an individual and, in some patients, the co-existence of AR-neutral clones. Using the genomic boundaries of pan-autosome copy number changes, we confirm a common clone of origin across metastases and diagnostic biopsies, and identified in individual patients, clusters of metastases occupied by dominant clones with diverged autosomal copy number alterations. These autosome-defined clusters are characterized by cluster-specific AR gene architectures, and in two index cases are topologically more congruent than by chance (p-values 3.07 × 10
    MeSH term(s) Male ; Humans ; DNA Copy Number Variations ; Prostatic Neoplasms/genetics ; Prostatic Neoplasms/pathology ; Receptors, Androgen/genetics ; Genome ; Genomics ; Clone Cells/pathology
    Chemical Substances Receptors, Androgen
    Language English
    Publishing date 2023-08-10
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2553671-0
    ISSN 2041-1723 ; 2041-1723
    ISSN (online) 2041-1723
    ISSN 2041-1723
    DOI 10.1038/s41467-023-40315-9
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  4. Article ; Online: Genetic landscape of prostate cancer conspicuity on multiparametric MRI: a protocol for a systematic review and bioinformatic analysis.

    Norris, Joseph M / Simpson, Benjamin S / Parry, Marina A / Allen, Clare / Ball, Rhys / Freeman, Alex / Kelly, Daniel / Kirkham, Alex / Kasivisvanathan, Veeru / Whitaker, Hayley C / Emberton, Mark

    BMJ open

    2020  Volume 10, Issue 1, Page(s) e034611

    Abstract: Introduction: The introduction of multiparametric MRI (mpMRI) has enabled enhanced risk stratification for men at risk of prostate cancer, through accurate prebiopsy identification of clinically significant disease. However, approximately 10%-20% of ... ...

    Abstract Introduction: The introduction of multiparametric MRI (mpMRI) has enabled enhanced risk stratification for men at risk of prostate cancer, through accurate prebiopsy identification of clinically significant disease. However, approximately 10%-20% of significant prostate cancer may be missed on mpMRI. It appears that the genomic basis of lesion visibility or invisibility on mpMRI may have key implications for prognosis and treatment. Here, we describe a protocol for the first systematic review and novel bioinformatic analysis of the genomic basis of prostate cancer conspicuity on mpMRI.
    Methods and analysis: A systematic search of MEDLINE, PubMed, EMBASE and Cochrane databases will be conducted. Screening, data extraction, statistical analysis and reporting will be performed in accordance with the Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) guidelines. Included papers will be full text articles, written between January 1980 and December 2019, comparing molecular characteristics of mpMRI-visible lesions and mpMRI-invisible lesions at the DNA, DNA-methylation, RNA or protein level. Study bias and quality will be assessed using a modified Newcastle-Ottawa score. Additionally, we will conduct a novel bioinformatic analysis of supplementary material and publicly available data, to combine transcriptomic data and reveal common pathways highlighted across studies. To ensure methodological rigour, this protocol is written in accordance with the PRISMA Protocol 2015 checklist.
    Ethics and dissemination: Ethical approval will not be required, as this is an academic review of published literature. Findings will be disseminated through publications in peer-reviewed journals, and presentations at national and international conferences.
    Prospero registration number: CRD42019147423.
    MeSH term(s) Computational Biology/methods ; Genomics ; Humans ; Image-Guided Biopsy ; Male ; Multiparametric Magnetic Resonance Imaging/methods ; Neoplasm Grading ; Prostatic Neoplasms/diagnosis ; Prostatic Neoplasms/diagnostic imaging ; Prostatic Neoplasms/genetics ; Prostatic Neoplasms/pathology ; Research Design ; Risk Factors ; Tumor Burden ; Systematic Reviews as Topic
    Language English
    Publishing date 2020-01-27
    Publishing country England
    Document type Journal Article
    ZDB-ID 2599832-8
    ISSN 2044-6055 ; 2044-6055
    ISSN (online) 2044-6055
    ISSN 2044-6055
    DOI 10.1136/bmjopen-2019-034611
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Genetic Landscape of Prostate Cancer Conspicuity on Multiparametric Magnetic Resonance Imaging: A Systematic Review and Bioinformatic Analysis.

    Norris, Joseph M / Simpson, Benjamin S / Parry, Marina A / Allen, Clare / Ball, Rhys / Freeman, Alex / Kelly, Daniel / Kim, Hyung L / Kirkham, Alex / You, Sungyong / Kasivisvanathan, Veeru / Whitaker, Hayley C / Emberton, Mark

    European urology open science

    2020  Volume 20, Page(s) 37–47

    Abstract: Context: Multiparametric magnetic resonance imaging (mpMRI) detects most, but not all, clinically significant prostate cancer. The genetic basis of prostate cancer visibility and invisibility on mpMRI remains uncertain.: Objective: To systematically ... ...

    Abstract Context: Multiparametric magnetic resonance imaging (mpMRI) detects most, but not all, clinically significant prostate cancer. The genetic basis of prostate cancer visibility and invisibility on mpMRI remains uncertain.
    Objective: To systematically review the literature on differential gene expression between mpMRI-visible and mpMRI-invisible prostate cancer, and to use bioinformatic analysis to identify enriched processes or cellular components in genes validated in more than one study.
    Evidence acquisition: We performed a systematic literature search of the Medline, EMBASE, PubMed, and Cochrane databases up to January 2020 in accordance with the Preferred Reporting Items for Systematic Reviews and Meta-analyses (PRISMA) statement. The primary endpoint was differential genetic features between mpMRI-visible and mpMRI-invisible tumours. Secondary endpoints were explanatory links between gene function and mpMRI conspicuity, and the prognostic value of differential gene enrichment.
    Evidence synthesis: We retrieved 445 articles, of which 32 met the criteria for inclusion. Thematic synthesis from the included studies showed that mpMRI-visible cancer tended towards enrichment of molecular features associated with increased disease aggressivity, including phosphatase and tensin homologue (
    Conclusions: Prostate cancer that is visible on mpMRI is generally enriched with molecular features of tumour development and aggressivity, including activation of proliferative signalling, DNA damage, and inflammatory processes. Additionally, there appears to be concordant cellular components and biological processes associated with mpMRI conspicuity, as highlighted by bioinformatic analysis of large genetic datasets.
    Patient summary: Prostate cancer that is detected by magnetic resonance imaging (MRI) tends to have genetic features that are associated with more aggressive disease. This suggests that MRI can be used to assess the likelihood of aggressive prostate cancer, based on tumour visibility.
    Language English
    Publishing date 2020-09-27
    Publishing country Netherlands
    Document type Journal Article ; Review
    ZDB-ID 3040546-4
    ISSN 2666-1683 ; 2058-4881
    ISSN (online) 2666-1683
    ISSN 2058-4881
    DOI 10.1016/j.euros.2020.06.006
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  6. Article ; Online: A Modified Newcastle-Ottawa Scale for Assessment of Study Quality in Genetic Urological Research.

    Norris, Joseph M / Simpson, Benjamin S / Ball, Rhys / Freeman, Alex / Kirkham, Alex / Parry, Marina A / Moore, Caroline M / Whitaker, Hayley C / Emberton, Mark

    European urology

    2020  Volume 79, Issue 3, Page(s) 325–326

    Abstract: Our modification of the traditional Newcastle-Ottawa scale enables urological researchers to effectively appraise and communicate the quality of genetic-based research in urology. ...

    Abstract Our modification of the traditional Newcastle-Ottawa scale enables urological researchers to effectively appraise and communicate the quality of genetic-based research in urology.
    MeSH term(s) Humans ; Urology
    Language English
    Publishing date 2020-12-26
    Publishing country Switzerland
    Document type Editorial ; Research Support, Non-U.S. Gov't
    ZDB-ID 193790-x
    ISSN 1873-7560 ; 1421-993X ; 0302-2838
    ISSN (online) 1873-7560 ; 1421-993X
    ISSN 0302-2838
    DOI 10.1016/j.eururo.2020.12.017
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    In stock of ZB MED Cologne/Königswinter

    Zs.A 1247: Show issues Location:
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    Zs.MO 294: Show issues

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  7. Article ; Online: Over-expression and purification of active serine proteases and their variants from Escherichia coli inclusion bodies.

    Parry, Marina A A

    Current protocols in protein science

    2002  Volume Chapter 21, Page(s) Unit 21.11

    Abstract: This unit describes the over-expression and purification of active serine proteases and their variants from E. coli inclusion bodies. The strategy includes the folding and purification of a stable zymogen precursor protein, and its later activation with ... ...

    Abstract This unit describes the over-expression and purification of active serine proteases and their variants from E. coli inclusion bodies. The strategy includes the folding and purification of a stable zymogen precursor protein, and its later activation with the appropriate convertase to the less stable but active protease. A test to follow the presence of activity in the samples, together with an active-site titration protocol to determine the number of active sites per mole of total protein are provided. It should be emphasized that although most of the protocols described are applied to a specific example, they are fairly representative of the methods and approaches generally used for laboratory-scale preparation of other recombinant serine proteases. The critical steps and how this template protocol can be adapted for the purification of other serine proteases are described.
    MeSH term(s) Cloning, Molecular/methods ; Enzyme Precursors ; Escherichia coli/genetics ; Inclusion Bodies/metabolism ; Methods ; Protein Folding ; Serine Endopeptidases/genetics ; Serine Endopeptidases/isolation & purification
    Chemical Substances Enzyme Precursors ; Serine Endopeptidases (EC 3.4.21.-)
    Language English
    Publishing date 2002-05
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2179077-2
    ISSN 1934-3663 ; 1934-3655
    ISSN (online) 1934-3663
    ISSN 1934-3655
    DOI 10.1002/0471140864.ps2111s27
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  8. Article ; Online: Genetic correlates of prostate cancer visibility (and invisibility) on multiparametric magnetic resonance imaging: it's time to take stock.

    Norris, Joseph M / Simpson, Benjamin S / Parry, Marina A / Kasivisvanathan, Veeru / Allen, Clare / Ball, Rhys / Freeman, Alex / Kelly, Daniel / Kirkham, Alex / Whitaker, Hayley C / Emberton, Mark

    BJU international

    2019  Volume 125, Issue 3, Page(s) 340–342

    MeSH term(s) Correlation of Data ; Humans ; Male ; Multiparametric Magnetic Resonance Imaging ; Prostatic Neoplasms/diagnostic imaging ; Prostatic Neoplasms/genetics
    Language English
    Publishing date 2019-12-20
    Publishing country England
    Document type Letter ; Research Support, Non-U.S. Gov't
    ZDB-ID 1462191-5
    ISSN 1464-410X ; 1464-4096 ; 1358-8672
    ISSN (online) 1464-410X
    ISSN 1464-4096 ; 1358-8672
    DOI 10.1111/bju.14919
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    Ui VI Zs.107: Show issues Location:
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    Zs.MO 13: Show issues

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  9. Article ; Online: Splenic marginal-zone lymphoma: ontogeny and genetics.

    Baliakas, Panagiotis / Strefford, Jonathan C / Bikos, Vasilis / Parry, Marina / Stamatopoulos, Kostas / Oscier, David

    Leukemia & lymphoma

    2014  Volume 56, Issue 2, Page(s) 301–310

    Abstract: Splenic marginal-zone lymphoma (SMZL) is a rare tumor that has recently emerged as a prototype for how the interplay between genetics and environment shapes the natural history of lymphomas. Indeed, the recent identification of molecular immunogenetic ... ...

    Abstract Splenic marginal-zone lymphoma (SMZL) is a rare tumor that has recently emerged as a prototype for how the interplay between genetics and environment shapes the natural history of lymphomas. Indeed, the recent identification of molecular immunogenetic subgroups within SMZL may prove to be relevant not only for the sub-classification of the disease but also for improved understanding of the underlying biology. In contrast to other B-cell lymphomas, SMZL lacks a characteristic genetic lesion, although the majority of cases harbor genomic aberrations, as recently revealed by high-throughput studies that identified recurrent genetic aberrations, several in pathways related to marginal-zone differentiation and B-cell signaling. Here we provide an overview of recent research into the molecular and cellular biology of SMZL and related disorders, with special emphasis on immunogenetics and genomic aberrations, and discuss the value of molecular and cellular markers for the diagnosis and differential diagnosis of these entities.
    MeSH term(s) B-Lymphocytes/metabolism ; B-Lymphocytes/pathology ; Chromosome Aberrations ; DNA Copy Number Variations ; Genetic Predisposition to Disease/genetics ; Humans ; Lymphoma, B-Cell, Marginal Zone/genetics ; Lymphoma, B-Cell, Marginal Zone/pathology ; Mutation ; Signal Transduction/genetics ; Splenic Neoplasms/genetics ; Splenic Neoplasms/pathology
    Language English
    Publishing date 2014-08-19
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Review
    ZDB-ID 1042374-6
    ISSN 1029-2403 ; 1042-8194
    ISSN (online) 1029-2403
    ISSN 1042-8194
    DOI 10.3109/10428194.2014.919636
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    Zs.A 2997: Show issues Location:
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    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
    Jg. 1995 - 2021: Lesesall (2.OG)
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  10. Article ; Online: CBL-MZ is not a single biological entity: evidence from genomic analysis and prolonged clinical follow-up.

    Parker, Helen / McIver-Brown, Neil Robert / Davis, Zadie A / Parry, Marina / Rose-Zerilli, Matthew J J / Xochelli, Aliki / Gibson, Jane / Walewska, Renata / Strefford, Jonathan C / Oscier, David G

    Blood advances

    2018  Volume 2, Issue 10, Page(s) 1116–1119

    MeSH term(s) Follow-Up Studies ; Genomics/methods ; Humans ; Lymphocytosis/genetics ; Lymphocytosis/pathology ; Lymphoma, B-Cell, Marginal Zone/genetics ; Lymphoma, B-Cell, Marginal Zone/pathology
    Language English
    Publishing date 2018-05-17
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2915908-8
    ISSN 2473-9537 ; 2473-9529
    ISSN (online) 2473-9537
    ISSN 2473-9529
    DOI 10.1182/bloodadvances.2018019760
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    Zs.A 7153: Show issues Location:
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